S-phase Progression
Gene co-expression module in Intestinal stem cells and transit amplifying cells
| Category | Cell cycle |
|---|---|
| Genes | 0 |
| Annotation certainty | 5 of 5 |
| Annotation consistency | 11 of 11 genes have a known function matching the annotation |
Why this annotation
Top hub genes include TYMS (thymidylate synthase, dTMP synthesis for DNA replication), DHFR (dihydrofolate reductase, folate metabolism for nucleotide synthesis), TK1 (thymidine kinase, salvage pathway), PCLAF (PCNA-associated, DNA replication), MYBL2 (transcription factor driving S/G2 genes), and multiple kinetochore/centromere components: CENPM, CENPK, CENPH, ZWINT, SPC25, MND1. The combination of nucleotide biosynthesis (TYMS, DHFR, TK1) with centromere assembly genes places this module at the S-phase to G2/M transition. TYMS and DHFR are classic S-phase markers and chemotherapy targets. The module is significantly down in CD inflammation and up with CD treatment, consistent with restoration of proliferative capacity. Neighbor context: sits between M35 (mitotic spindle) and M82 (DNA repair/replication), reinforcing S-phase identity.
Genes
Most correlated modules
- DNA Replication/Repair · correlation 0.92
- Lagging Strand Synthesis · correlation 0.87
- Replication Initiation · correlation 0.85
- DNA Repair S-phase · correlation 0.85
- DNA Replication Fork · correlation 0.83
- S/G2 Transition · correlation 0.81
- Nuclear Architecture · correlation 0.80
- Mitotic Spindle · correlation 0.70
Module annotations were drafted by a large language model from the module's genes, then reviewed and approved by a domain expert. See sources & licences.